Atomistry » Calcium » PDB 8fyo-8gsw » 8fyo
Atomistry »
  Calcium »
    PDB 8fyo-8gsw »
      8fyo »

Calcium in PDB 8fyo: Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources

Enzymatic activity of Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources

All present enzymatic activity of Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources:
3.4.21.64;

Calcium Binding Sites:

The binding sites of Calcium atom in the Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources (pdb code 8fyo). This binding sites where shown within 5.0 Angstroms radius around Calcium atom.
In total 2 binding sites of Calcium where determined in the Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources, PDB code: 8fyo:
Jump to Calcium binding site number: 1; 2;

Calcium binding site 1 out of 2 in 8fyo

Go back to Calcium Binding Sites List in 8fyo
Calcium binding site 1 out of 2 in the Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 1 of Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca402

b:16.2
occ:1.00
O A:THR121 2.3 14.7 1.0
O A:HOH652 2.3 28.2 1.0
O A:HOH673 2.3 19.4 1.0
O A:HOH712 2.4 27.5 1.0
OD1 A:ASP365 2.4 19.5 1.0
OD2 A:ASP365 2.5 18.1 1.0
O A:HOH678 2.5 33.0 1.0
CG A:ASP365 2.8 18.4 1.0
C A:THR121 3.5 12.3 1.0
HB A:THR121 3.6 18.5 1.0
HA A:SER122 3.6 16.7 0.8
HH22 A:ARG117 3.8 15.2 1.0
O A:HOH709 4.1 36.4 1.0
HB3 A:ASN362 4.2 12.7 0.9
CB A:ASP365 4.2 15.8 1.0
O A:HOH575 4.3 27.4 1.0
HA A:THR121 4.3 15.3 0.8
CB A:THR121 4.3 15.7 1.0
CA A:THR121 4.3 12.8 1.0
N A:SER122 4.4 12.7 1.0
CA A:SER122 4.4 14.1 1.0
OD1 A:ASN362 4.4 12.2 1.0
HB3 A:ASP365 4.5 19.2 0.9
HB3 A:SER122 4.6 19.2 1.0
NH2 A:ARG117 4.6 12.8 1.0
HA A:ASP365 4.7 16.6 0.9
HB2 A:ASP365 4.7 19.2 0.6
CG A:ASN362 4.7 11.1 1.0
HD3 A:PRO123 4.8 16.8 0.7
HH21 A:ARG117 4.8 15.2 1.0
OG1 A:THR121 4.9 16.9 1.0
CB A:ASN362 4.9 10.7 1.0

Calcium binding site 2 out of 2 in 8fyo

Go back to Calcium Binding Sites List in 8fyo
Calcium binding site 2 out of 2 in the Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources


Mono view


Stereo pair view

A full contact list of Calcium with other atoms in the Ca binding site number 2 of Microed Structure of Proteinase K From Lamellae Milled From Multiple Plasma Sources within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Ca403

b:6.7
occ:1.00
O A:PRO280 2.3 7.8 1.0
O A:VAL282 2.4 6.3 1.0
OD2 A:ASP305 2.4 6.7 1.0
O A:HOH676 2.5 10.3 1.0
O A:HOH597 2.5 5.9 1.0
O A:HOH632 2.5 8.9 0.9
O A:HOH542 2.5 8.0 1.0
OD1 A:ASP305 2.6 9.1 1.0
CG A:ASP305 2.9 8.0 1.0
C A:PRO280 3.5 7.9 1.0
C A:VAL282 3.6 6.0 1.0
HA A:CYS283 3.7 7.7 1.0
HA A:PRO280 3.8 10.6 1.0
H A:THR284 3.9 8.2 0.9
H A:VAL282 4.1 8.1 1.0
N A:VAL282 4.2 6.9 1.0
HH12 A:ARG355 4.2 56.1 0.6
CA A:PRO280 4.2 9.2 1.0
O A:VAL303 4.3 8.4 1.0
HH22 A:ARG355 4.4 46.7 0.6
CB A:ASP305 4.4 8.1 1.0
C A:SER281 4.4 7.4 1.0
HA A:SER281 4.4 9.9 1.0
CA A:CYS283 4.4 6.6 1.0
N A:SER281 4.5 8.3 1.0
N A:CYS283 4.5 7.0 1.0
O A:HOH745 4.5 15.3 0.6
O A:GLU279 4.5 7.6 1.0
O A:HOH755 4.5 17.9 1.0
CA A:VAL282 4.6 6.4 1.0
N A:THR284 4.6 6.8 1.0
HG21 A:VAL303 4.6 12.8 0.1
CA A:SER281 4.7 8.4 1.0
O A:HOH603 4.7 11.8 1.0
HB A:THR284 4.7 7.4 1.0
HB2 A:ASP305 4.7 9.6 1.0
O A:HOH626 4.7 17.2 0.8
HB3 A:ASP305 4.8 9.6 1.0
O A:HOH742 4.8 42.7 1.0
NH1 A:ARG355 4.8 48.1 0.6
OG1 A:THR284 4.8 5.2 1.0
SG A:CYS354 4.9 9.8 1.0
HG1 A:THR284 4.9 6.5 0.0
HG23 A:VAL303 4.9 12.8 0.0
O A:SER281 5.0 8.1 1.0

Reference:

M.W.Martynowycz, A.Shiriaeva, M.T.B.Clabbers, W.J.Nicolas, S.J.Weaver, J.Hattne, T.Gonen. A Robust Approach For Microed Sample Preparation of Lipidic Cubic Phase Embedded Membrane Protein Crystals. Nat Commun V. 14 1086 2023.
ISSN: ESSN 2041-1723
PubMed: 36841804
DOI: 10.1038/S41467-023-36733-4
Page generated: Fri Jul 19 09:05:10 2024

Last articles

Mg in 4Y52
Mg in 4Y30
Mg in 4Y2V
Mg in 4Y2X
Mg in 4Y2Y
Mg in 4Y2U
Mg in 4Y2T
Mg in 4Y2Q
Mg in 4Y2R
Mg in 4Y2S
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy